User: florian.noack

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Posts by florian.noack

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Answer: A: Diffbind: edgeR or DESeq2 ?
... In other words you recommend not to use the substraction method but filter out peaks falling in the mention blacklist and set bSubControl=F ? About the csaw package: Iam not sure if a windowed approach is usefull in my case since I have quite "sharp" and seperated peaks (mostly around 125- 250 bp) ...
written 20 months ago by florian.noack60
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Answer: A: Diffbind: edgeR or DESeq2 ?
... Thanks a lot for the fast response from both of you. The samples I compare are linage related cell types and I know already from some other analysis which I did that I have only a few sites which show a different methylation  (3k out of 600k called peaks in the other approach I used) so I think edge ...
written 20 months ago by florian.noack60
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Diffbind: edgeR or DESeq2 ?
... Hi everybody, right now Iam trying to analyse my MeDip data set using Diffbind and Iam quite confused whather to use edgeR or DESeq2 for the analysis (iam a biologist with zero training in statistics and bioinformatics try to teach himself all the stuff). I tried already both options and DESeq2 giv ...
edger diffbind deseq2 medip-seq written 20 months ago by florian.noack60 • updated 23 days ago by Rory Stark2.1k

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Popular Question 20 months ago, created a question with more than 1,000 views. For Diffbind: edgeR or DESeq2 ?

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